Broad-toothed Rat, Genome Resequencing, Illumina FASTQ, Ear Snip
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Data and Resources
This data is made available openly under a Creative Commons Attribution license.
Please see the initiative
Data Policy
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Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:tsi-consortium-members |
| Access Control Date | 2022-04-19 |
| Access Control Mode | date |
| Sequence Data Type | illumina-shortread |
| access_rights | No Restrictions |
| analysis_software | NovaSeq Control Software (NCS) v1.7.0 and Real Time Analysis (RTA) v3.4.4, bcl2fastq 2.20.0.422 |
| ancillary_notes | Identified by K.K. Roberts |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/illumina-shortread/BPAOPS-1065/20210419_TSI_AGRF_H3VNHDSX2/ |
| ccg_jira_ticket | BPAOPS-1065 |
| certainty | Confident |
| class | Mammalia |
| collection_date | 2013-11-25 |
| collector | K.K. Roberts |
| collector_sample_id | KKR159 |
| common_name | Broad-toothed Rat |
| country | Australia |
| data_context | Genome Resequencing |
| data_custodian | Kevin C. Rowe |
| data_type | Illumina FASTQ |
| dataset_id | 102.100.100/358735 |
| date_of_transfer | 2021-04-19 |
| date_of_transfer_to_archive | 2021-04-19 |
| description | NovaSeq 6000; IDT xGen Prism; Dataset ID 358732, 358733, 358734, 358735 |
| family | Muridae |
| file_type | fastq.gz |
| flow_cell_id | H3VNHDSX2 |
| flowcell_id | H3VNHDSX2 |
| flowcell_type | S4-300 |
| folder_name | 20210419_TSI_AGRF_ H3VNHDSX2 |
| genotypic_sex | not determined |
| genus | Mastacomys |
| insert_size_range | 350.0 |
| institution_name | Museums Victoria |
| library_construction_protocol | IDT xGen Prism |
| library_id | 357583 |
| library_index_id | IDT8_i7_80 & IDT8_i5_80 |
| library_index_sequence | ATGCACGA-AGATCGTC |
| library_layout | PE |
| library_pcr_cycles | 10.0 |
| library_type | DNA |
| lifestage | Adult |
| location_text | Alpine National Park, Davies Plain Camp, 16.91 km south east of Mt Pinnibar summit, and 6.70 km north east of Davies Plain Track and Kings Plain 4WD Track junction |
| material_conc_ng_ul | 7.85 |
| material_extracted_by | Amy Adams |
| material_extraction_date | 2020-10-13 |
| material_extraction_method | Qiagen DNeasy Spin Column |
| material_extraction_type | DNA |
| metadata_revision_date | 2025-08-26 |
| metadata_revision_filename | 20250826_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | unknown |
| n_libraries_pooled | 96.0 |
| order | Rodentia |
| phenotypic_sex | Female |
| phylum | Chordata |
| sample_custodian | Kevin C. Rowe |
| sample_id | 102.100.100/355572 |
| sample_quality | Good (High Molecular Weight) |
| sequencing_facility | AGRF |
| sequencing_model | 6000.0 |
| sequencing_platform | NovaSeq |
| species | fuscus |
| specimen_id | Z22680 |
| specimen_id_description | Museums Victoria registration number |
| state_or_region | Victoria |
| taxon_id | 337222.0 |
| taxonomic_group | Mammal |
| ticket | BPAOPS-1065 |
| tissue_collection | Mammalogy |
| tissue_number | Z22680_Ear |
| tissue_preservation | Ethanol (70%) LN2 storage |
| tissue_preservation_temperature | -196.0 |
| tissue_type | Ear Snip |
| wild_captive | wild-caught |